Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of <i>Teleostei</i>
The innate immune system is the first line of defense in multicellular organisms. <i>Danio rerio</i> is widely considered a promising model for IIS-related research, with the most amount of scRNAseq data available among <i>Teleostei</i>. We summarized the scRNAseq and spatial...
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| Format: | Article |
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MDPI AG
2023-12-01
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| Series: | Biology |
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| Online Access: | https://www.mdpi.com/2079-7737/12/12/1516 |
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| author | Aleksandr V. Bobrovskikh Ulyana S. Zubairova Alexey V. Doroshkov |
| author_facet | Aleksandr V. Bobrovskikh Ulyana S. Zubairova Alexey V. Doroshkov |
| author_sort | Aleksandr V. Bobrovskikh |
| collection | DOAJ |
| description | The innate immune system is the first line of defense in multicellular organisms. <i>Danio rerio</i> is widely considered a promising model for IIS-related research, with the most amount of scRNAseq data available among <i>Teleostei</i>. We summarized the scRNAseq and spatial transcriptomics experiments related to the IIS for zebrafish and other <i>Teleostei</i> from the GEO NCBI and the Single-Cell Expression Atlas. We found a considerable number of scRNAseq experiments at different stages of zebrafish development in organs such as the kidney, liver, stomach, heart, and brain. These datasets could be further used to conduct large-scale meta-analyses and to compare the IIS of zebrafish with the mammalian one. However, only a small number of scRNAseq datasets are available for other fish (turbot, salmon, cavefish, and dark sleeper). Since fish biology is very diverse, it would be a major mistake to use zebrafish alone in fish immunology studies. In particular, there is a special need for new scRNAseq experiments involving nonmodel <i>Teleostei</i>, e.g., long-lived species, cancer-resistant fish, and various fish ecotypes. |
| first_indexed | 2024-03-08T20:58:53Z |
| format | Article |
| id | doaj.art-a414431911634e6caaf143d017bd2b70 |
| institution | Directory Open Access Journal |
| issn | 2079-7737 |
| language | English |
| last_indexed | 2024-03-08T20:58:53Z |
| publishDate | 2023-12-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Biology |
| spelling | doaj.art-a414431911634e6caaf143d017bd2b702023-12-22T13:54:30ZengMDPI AGBiology2079-77372023-12-011212151610.3390/biology12121516Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of <i>Teleostei</i>Aleksandr V. Bobrovskikh0Ulyana S. Zubairova1Alexey V. Doroshkov2Department of Physics, Novosibirsk State University, 630090 Novosibirsk, RussiaThe Federal Research Center Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, 630090 Novosibirsk, RussiaThe Federal Research Center Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, 630090 Novosibirsk, RussiaThe innate immune system is the first line of defense in multicellular organisms. <i>Danio rerio</i> is widely considered a promising model for IIS-related research, with the most amount of scRNAseq data available among <i>Teleostei</i>. We summarized the scRNAseq and spatial transcriptomics experiments related to the IIS for zebrafish and other <i>Teleostei</i> from the GEO NCBI and the Single-Cell Expression Atlas. We found a considerable number of scRNAseq experiments at different stages of zebrafish development in organs such as the kidney, liver, stomach, heart, and brain. These datasets could be further used to conduct large-scale meta-analyses and to compare the IIS of zebrafish with the mammalian one. However, only a small number of scRNAseq datasets are available for other fish (turbot, salmon, cavefish, and dark sleeper). Since fish biology is very diverse, it would be a major mistake to use zebrafish alone in fish immunology studies. In particular, there is a special need for new scRNAseq experiments involving nonmodel <i>Teleostei</i>, e.g., long-lived species, cancer-resistant fish, and various fish ecotypes.https://www.mdpi.com/2079-7737/12/12/1516aquaculturedrug developmentgene networksimmunitymeta-analysismodel organisms |
| spellingShingle | Aleksandr V. Bobrovskikh Ulyana S. Zubairova Alexey V. Doroshkov Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of <i>Teleostei</i> Biology aquaculture drug development gene networks immunity meta-analysis model organisms |
| title | Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of <i>Teleostei</i> |
| title_full | Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of <i>Teleostei</i> |
| title_fullStr | Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of <i>Teleostei</i> |
| title_full_unstemmed | Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of <i>Teleostei</i> |
| title_short | Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of <i>Teleostei</i> |
| title_sort | fishing innate immune system properties through the transcriptomic single cell data of i teleostei i |
| topic | aquaculture drug development gene networks immunity meta-analysis model organisms |
| url | https://www.mdpi.com/2079-7737/12/12/1516 |
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